Inpactor2: LTR retrotransposon detector and classificator using Deep Learning

Python-first CLI pipeline for transposable element discovery and annotation, integrating family-specific methods with reproducible diagnostics and modernization from legacy workflows. Published in BMC Bioinformatics (2023).

A machine learning pipeline for comparative analysis of 45S rRNA genes from plant NOR regions

An R package to identify plant transcription factors from protein sequence data and classify them in families

"植物基因组"(plantgenomes)微信公众号

NLR-Assembler is a command line tool for improving RenSeq Assemblies using linked-read sequencing by 10x Genomics.

An R interface to the PLAZA database for plant comparative genomics

Comprehensive notes, workflows, and projects from 2025 research trainings on 16S rRNA, scRNA-seq, Nextflow, Galaxy, plant & marine genomics, and cancer bioinformatics, including hands-on Galaxy and reproducible pipeline .

Data and code used in the Plant Genomes dashboard

Phylogenetic tree of LAR and other PIP family enzymes as shown in Güngör et al. 2020. This repository details all code and intermediate files used.

Interpretable machine learning for plant stress prediction using public transcriptomic data.

Phylogeny and classification of Azolla filiculoides MYB genes